Software

http://www.open-bio.org/wiki/Main_Page

Bioinformtaics Tools

Confab:
Confab - Systematic generation of diverse low-energy conformers  

Open Source Tools for Chemistry:

 

The scientific process improves placing your methods and results in the public domain and allowing other scientists to build on your work to make additional discoveries or apply your methods to new problems. Applying the same idea to the development of software leads to Open Source software.

Protein Binding

http://sw16.im.med.umich.edu/databases/pdbbind/index.jsp

Protein Domains: Cell Signaling

PFAM
PDBeFold
 Scop

Protein domains

Protein Domains @ Wiki

Complexes